#!/usr/bin/env python3 # -*- coding: utf-8 -*- """ Created on Thu Nov 12 15:20:32 2020 @author: tanu """ print('============================================' , '\nQuick summary output for', drug, 'and' , gene.lower() , '\n============================================' , '\nTotal samples:', total_samples , '\nNo. of Sus and Res', drug, 'samples:\n', meta_data[drug].value_counts() , '\n' , '\nPercentage of Sus and Res', drug, 'samples:\n', meta_data[drug].value_counts(normalize = True)*100 , '\n' , '\nTotal no.of unique dr muts:', mut_grouped[dr_muts_col] , '\nTotal no.of unique other muts:', mut_grouped[other_muts_col] , '\nTotal no.of unique missense muts:', gene_LF1['mutationinformation'].nunique() , '\nTotal no.of unique positions associated with missense muts:',gene_LF1['position'].nunique() , '\nTotal no. of samples with missense muts:', len(gene_LF1) , '\nTotal no. of unique samples with missense muts:', gene_LF1['id'].nunique() , '\n' , '\nTotal no.of samples with common_ids:', nu_common_ids['id'] , '\nTotal no.of samples with ambiguous muts:', len(inspect) #, '\nTotal no.of unique ambiguous muts:', len(common_muts) , '\nTotal no.of unique ambiguous muts:', inspect['mutation'].nunique() , '\n=============================================================' , '\n\n\n') print('\n----------------------------------' , '\nWriting subsetted gwas data:', gene , '\n----------------------------------' , '\nFile', check_file , '\nDim:', meta_data.shape)